User: jevanveen

gravatar for jevanveen
jevanveen20
Reputation:
20
Status:
New User
Location:
Last seen:
3 weeks ago
Joined:
6 months, 1 week ago
Email:
j********@alum.mit.edu

Posts by jevanveen

<prev • 6 results • page 1 of 1 • next >
1
vote
0
answers
165
views
0
answers
QC before single cell RNA seq?
... Background: We have done single cell RNA seq, it went well, and we are preparing to do more projects. When we did it the first time, we troubleshot our cell dissociation protocol and made sure that we could get good RINs from bulk RNA before proceeding. Now we are dealing with projects that have f ...
qc rna-seq single cell written 3 months ago by jevanveen20
0
votes
1
answer
491
views
1
answers
Comment: C: Single cell RNA-seq guided correlation analysis
... Thank you - very helpful insights ...
written 5 months ago by jevanveen20
0
votes
1
answer
491
views
1
answers
Comment: C: Single cell RNA-seq guided correlation analysis
... Thank you - I was playing with WGCNA a bit before posting this, but it seems to do whole transcriptome clustering, whereas I want to specifically start with an a priori list that I took from an scRNA seq paper to asses coordinate regulation of cell differentiation state. It kind of sounds like this ...
written 5 months ago by jevanveen20
1
vote
2
answers
282
views
2
answers
Answer: A: How to analyse RNA-Seq data with JUST geneID and TPM values
... DESeq2 is probably what you want. It does a fine job of giving you DE genes starting with TPM values generated by Kallisto or Salmon. There's a user friendly interface available (free) at usegalazy.org ...
written 5 months ago by jevanveen20
2
votes
1
answer
491
views
1
answer
Single cell RNA-seq guided correlation analysis
... I would very much appreciate help with what is probably a pretty basic question. First, the question stated as succinctly as I can: ** Using an a priori list of genes, what is the best way to: 1. Test if their expressions correlate with one another across different RNA- SEQ samples? 2. Rank all ...
basics correlation rna-seq written 5 months ago by jevanveen20 • updated 5 months ago by munizmom60
0
votes
0
answers
271
views
0
answers
How to add tdtomato to mouse genome for RNA seq analysis
... Hello all! I am currently analyzing some RNA seq data derived from mice that express the reporter, tdtomato, under an endogenous promoter. I'd like to get read counts for tdtomato, but obviously it isn't part of the mouse transcriptome, and therefore Salmon doesn't map reads to it. From what I ca ...
salmon rna-seq written 6 months ago by jevanveen20

Latest awards to jevanveen

No awards yet. Soon to come :-)

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1604 users visited in the last hour